data_2BVK # _entry.id 2BVK # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.329 _audit_conform.dict_location http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic # loop_ _database_2.database_id _database_2.database_code PDB 2BVK PDBE EBI-24674 WWPDB D_1290024674 # loop_ _pdbx_database_related.db_name _pdbx_database_related.db_id _pdbx_database_related.content_type _pdbx_database_related.details PDB 1HYA unspecified . PDB 2HYA unspecified . PDB 3HYA unspecified . PDB 4HYA unspecified . # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 2BVK _pdbx_database_status.deposit_site PDBE _pdbx_database_status.process_site PDBE _pdbx_database_status.SG_entry . _pdbx_database_status.recvd_initial_deposition_date 2005-06-30 _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.status_code_sf ? _pdbx_database_status.status_code_mr ? _pdbx_database_status.status_code_cs ? _pdbx_database_status.methods_development_category ? _pdbx_database_status.status_code_nmr_data ? # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Almond, A.' 1 'DeAngelis, P.L.' 2 'Blundell, C.D.' 3 # _citation.id primary _citation.title ;Hyaluronan: The Local Solution Conformation Determined by NMR and Computer Modeling is Close to a Contracted Left-Handed 4-Fold Helix. ; _citation.journal_abbrev J.Mol.Biol. _citation.journal_volume 358 _citation.page_first 1256 _citation.page_last ? _citation.year 2006 _citation.journal_id_ASTM JMOBAK _citation.country UK _citation.journal_id_ISSN 0022-2836 _citation.journal_id_CSD 0070 _citation.book_publisher ? _citation.pdbx_database_id_PubMed 16584748 _citation.pdbx_database_id_DOI 10.1016/J.JMB.2006.02.077 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Almond, A.' 1 ? primary 'Deangelis, P.L.' 2 ? primary 'Blundell, C.D.' 3 ? # _cell.entry_id 2BVK _cell.length_a 1.000 _cell.length_b 1.000 _cell.length_c 1.000 _cell.angle_alpha 90.00 _cell.angle_beta 90.00 _cell.angle_gamma 90.00 _cell.Z_PDB 1 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2BVK _symmetry.space_group_name_H-M 'P 1' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 # _entity.id 1 _entity.type branched _entity.src_method man _entity.pdbx_description ;2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-beta-D-glucopyranuronic acid-(1-3)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-beta-D-glucopyranuronic acid-(1-3)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-beta-D-glucopyranuronic acid-(1-3)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-beta-D-glucopyranuronic acid ; _entity.formula_weight 1535.282 _entity.pdbx_number_of_molecules 1 _entity.pdbx_ec ? _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.details ? # loop_ _chem_comp.id _chem_comp.type _chem_comp.mon_nstd_flag _chem_comp.name _chem_comp.pdbx_synonyms _chem_comp.formula _chem_comp.formula_weight BDP 'D-saccharide, beta linking' . 'beta-D-glucopyranuronic acid' 'D-GLUCURONIC ACID' 'C6 H10 O7' 194.139 NAG 'D-saccharide, beta linking' . 2-acetamido-2-deoxy-beta-D-glucopyranose ? 'C8 H15 N O6' 221.208 # loop_ _pdbx_nmr_exptl.experiment_id _pdbx_nmr_exptl.conditions_id _pdbx_nmr_exptl.type _pdbx_nmr_exptl.solution_id 1 1 '[1H-15N] HSQC' 1 2 1 '[1H-1H-15N] NOESY-H' 1 # _pdbx_nmr_exptl_sample_conditions.conditions_id 1 _pdbx_nmr_exptl_sample_conditions.temperature 298 _pdbx_nmr_exptl_sample_conditions.pressure_units ? _pdbx_nmr_exptl_sample_conditions.pressure ? _pdbx_nmr_exptl_sample_conditions.pH 6.0 _pdbx_nmr_exptl_sample_conditions.ionic_strength ? _pdbx_nmr_exptl_sample_conditions.ionic_strength_units ? _pdbx_nmr_exptl_sample_conditions.pH_units pH _pdbx_nmr_exptl_sample_conditions.temperature_units K _pdbx_nmr_exptl_sample_conditions.label ? # _pdbx_nmr_spectrometer.spectrometer_id 1 _pdbx_nmr_spectrometer.model OMEGA _pdbx_nmr_spectrometer.manufacturer GE _pdbx_nmr_spectrometer.field_strength 600 _pdbx_nmr_spectrometer.type ? # _pdbx_nmr_refine.entry_id 2BVK _pdbx_nmr_refine.method 'MOLECULAR DYNAMICS CONFIRMED BY BA CALCULATION OF EXPERIMENTAL NMR PA' _pdbx_nmr_refine.details ? _pdbx_nmr_refine.software_ordinal 1 # _pdbx_nmr_details.entry_id 2BVK _pdbx_nmr_details.text 'IONS AND WATER WERE REMOVED TO GENERATE ATOMIC COORDINATES' # _pdbx_nmr_ensemble.entry_id 2BVK _pdbx_nmr_ensemble.conformers_calculated_total_number 250000 _pdbx_nmr_ensemble.conformers_submitted_total_number 1 _pdbx_nmr_ensemble.conformer_selection_criteria ;AVERAGE CONFORMATION FROM A 50 NAN MOLECULAR DYNAMICS TRAJECTORY THAT EXPLICIT SOLVENT WATER AND CHARGE SODIUM IONS. THE 1-3 AND 1-4 LINKA FIXED AT (50.78, 9.78) AND (47.98, RESPECTIVELY USING THE H1-C1-OX-HX NOMENCLATURE ; # loop_ _pdbx_nmr_software.classification _pdbx_nmr_software.name _pdbx_nmr_software.version _pdbx_nmr_software.authors _pdbx_nmr_software.ordinal refinement CHARMM ? 'BROOKS,BRUCCOLERI,OLAFSEN,STATES, SWAMINATHAN, KARPLUS' 1 'structure solution' CHARMM ? ? 2 # loop_ _exptl.entry_id _exptl.method _exptl.crystals_number 2BVK 'SOLUTION NMR' ? 2BVK 'THEORETICAL MODEL' ? # _struct.entry_id 2BVK _struct.title ;Hyaluronan: the local solution conformation determined by NMR and computer modelling is close to a contracted left-handed four-fold helix ; _struct.pdbx_descriptor 'CELL ADHESION' _struct.pdbx_model_details ;50 NANOSECOND FREE MOLECULAR DYNAMICS SIMULATION WITH EXPLIC INCLUSION OF WATER MOLECULES AND IONS AND A FORCE-FIELD DERIVED FOR CARBOHYRDRATES. THE DERIVED PDB STRUCTURE WAS THE AVERAGE CONFORMAT OBSERVED DURING THE MOLECULAR DYNAMICS SIMULATION ; _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details 'MINIMIZED AVERAGE' # _struct_keywords.entry_id 2BVK _struct_keywords.pdbx_keywords 'CELL ADHESION' _struct_keywords.text ;CELL ADHESION, HYALURONAN, GLYCOSAMINOGLYCAN, CARBOHYDRATE, N-ACETYL- GLUCOSAMINE, GLUCURONIC ACID, EXTRACELLULAR MATRIX, SIMLUATION, AQUEOUS MOLECULAR DYNAMICS, HYALURONIC ACID, SODIUM HYALURONATE ; # _struct_asym.id A _struct_asym.pdbx_blank_PDB_chainid_flag N _struct_asym.pdbx_modified N _struct_asym.entity_id 1 _struct_asym.details ? # loop_ _struct_conn.id _struct_conn.conn_type_id _struct_conn.pdbx_leaving_atom_flag _struct_conn.pdbx_PDB_id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_label_atom_id _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_label_atom_id _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.details _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order _struct_conn.pdbx_role covale1 covale both ? A BDP . O4 ? ? ? 1_555 A NAG . C1 ? ? P BDP 1 P NAG 2 1_555 ? ? ? ? ? ? ? 1.395 ? ? covale2 covale both ? A NAG . O3 ? ? ? 1_555 A BDP . C1 ? ? P NAG 2 P BDP 3 1_555 ? ? ? ? ? ? ? 1.397 ? ? covale3 covale both ? A BDP . O4 ? ? ? 1_555 A NAG . C1 ? ? P BDP 3 P NAG 4 1_555 ? ? ? ? ? ? ? 1.396 ? ? covale4 covale both ? A NAG . O3 ? ? ? 1_555 A BDP . C1 ? ? P NAG 4 P BDP 5 1_555 ? ? ? ? ? ? ? 1.397 ? ? covale5 covale both ? A BDP . O4 ? ? ? 1_555 A NAG . C1 ? ? P BDP 5 P NAG 6 1_555 ? ? ? ? ? ? ? 1.395 ? ? covale6 covale both ? A NAG . O3 ? ? ? 1_555 A BDP . C1 ? ? P NAG 6 P BDP 7 1_555 ? ? ? ? ? ? ? 1.397 ? ? covale7 covale both ? A BDP . O4 ? ? ? 1_555 A NAG . C1 ? ? P BDP 7 P NAG 8 1_555 ? ? ? ? ? ? ? 1.395 ? ? # _struct_conn_type.id covale _struct_conn_type.criteria ? _struct_conn_type.reference ? # _database_PDB_matrix.entry_id 2BVK _database_PDB_matrix.origx[1][1] 1.000000 _database_PDB_matrix.origx[1][2] 0.000000 _database_PDB_matrix.origx[1][3] 0.000000 _database_PDB_matrix.origx[2][1] 0.000000 _database_PDB_matrix.origx[2][2] 1.000000 _database_PDB_matrix.origx[2][3] 0.000000 _database_PDB_matrix.origx[3][1] 0.000000 _database_PDB_matrix.origx[3][2] 0.000000 _database_PDB_matrix.origx[3][3] 1.000000 _database_PDB_matrix.origx_vector[1] 0.00000 _database_PDB_matrix.origx_vector[2] 0.00000 _database_PDB_matrix.origx_vector[3] 0.00000 # _atom_sites.entry_id 2BVK _atom_sites.fract_transf_matrix[1][1] 1.000000 _atom_sites.fract_transf_matrix[1][2] 0.000000 _atom_sites.fract_transf_matrix[1][3] 0.000000 _atom_sites.fract_transf_matrix[2][1] 0.000000 _atom_sites.fract_transf_matrix[2][2] 1.000000 _atom_sites.fract_transf_matrix[2][3] 0.000000 _atom_sites.fract_transf_matrix[3][1] 0.000000 _atom_sites.fract_transf_matrix[3][2] 0.000000 _atom_sites.fract_transf_matrix[3][3] 1.000000 _atom_sites.fract_transf_vector[1] 0.00000 _atom_sites.fract_transf_vector[2] 0.00000 _atom_sites.fract_transf_vector[3] 0.00000 # loop_ _atom_type.symbol C H N O # loop_ _atom_site.group_PDB _atom_site.id _atom_site.type_symbol _atom_site.label_atom_id _atom_site.label_alt_id _atom_site.label_comp_id _atom_site.label_asym_id _atom_site.label_entity_id _atom_site.label_seq_id _atom_site.pdbx_PDB_ins_code _atom_site.Cartn_x _atom_site.Cartn_y _atom_site.Cartn_z _atom_site.occupancy _atom_site.B_iso_or_equiv _atom_site.pdbx_formal_charge _atom_site.auth_seq_id _atom_site.auth_comp_id _atom_site.auth_asym_id _atom_site.auth_atom_id _atom_site.pdbx_PDB_model_num HETATM 1 C C1 . BDP A 1 . ? -11.194 -27.282 -5.511 1.00 0.00 ? 1 BDP P C1 1 HETATM 2 C C2 . BDP A 1 . ? -9.737 -27.723 -5.479 1.00 0.00 ? 1 BDP P C2 1 HETATM 3 C C3 . BDP A 1 . ? -9.075 -27.252 -4.201 1.00 0.00 ? 1 BDP P C3 1 HETATM 4 C C4 . BDP A 1 . ? -9.251 -25.761 -4.039 1.00 0.00 ? 1 BDP P C4 1 HETATM 5 C C5 . BDP A 1 . ? -10.718 -25.379 -4.130 1.00 0.00 ? 1 BDP P C5 1 HETATM 6 C C6 . BDP A 1 . ? -10.940 -23.856 -4.024 1.00 0.00 ? 1 BDP P C6 1 HETATM 7 O O2 . BDP A 1 . ? -9.661 -29.136 -5.557 1.00 0.00 ? 1 BDP P O2 1 HETATM 8 O O3 . BDP A 1 . ? -7.695 -27.557 -4.222 1.00 0.00 ? 1 BDP P O3 1 HETATM 9 O O4 . BDP A 1 . ? -8.758 -25.390 -2.785 1.00 0.00 ? 1 BDP P O4 1 HETATM 10 O O5 . BDP A 1 . ? -11.264 -25.865 -5.356 1.00 0.00 ? 1 BDP P O5 1 HETATM 11 O O6A . BDP A 1 . ? -11.621 -23.425 -3.094 1.00 0.00 ? 1 BDP P O6A 1 HETATM 12 O O1 . BDP A 1 . ? -11.782 -27.674 -6.718 1.00 0.00 ? 1 BDP P O1 1 HETATM 13 O O6B . BDP A 1 . ? -10.430 -23.117 -4.868 1.00 0.00 ? 1 BDP P O6B 1 HETATM 14 H H1 . BDP A 1 . ? -11.758 -27.722 -4.667 1.00 0.00 ? 1 BDP P H1 1 HETATM 15 H H2 . BDP A 1 . ? -9.205 -27.291 -6.342 1.00 0.00 ? 1 BDP P H2 1 HETATM 16 H H3 . BDP A 1 . ? -9.540 -27.755 -3.338 1.00 0.00 ? 1 BDP P H3 1 HETATM 17 H H4 . BDP A 1 . ? -8.669 -25.228 -4.809 1.00 0.00 ? 1 BDP P H4 1 HETATM 18 H H5 . BDP A 1 . ? -11.276 -25.880 -3.324 1.00 0.00 ? 1 BDP P H5 1 HETATM 19 C C1 . NAG A 1 . ? -7.801 -24.376 -2.747 1.00 0.00 ? 2 NAG P C1 1 HETATM 20 C C2 . NAG A 1 . ? -7.655 -23.916 -1.314 1.00 0.00 ? 2 NAG P C2 1 HETATM 21 C C3 . NAG A 1 . ? -6.620 -22.820 -1.197 1.00 0.00 ? 2 NAG P C3 1 HETATM 22 C C4 . NAG A 1 . ? -5.331 -23.229 -1.864 1.00 0.00 ? 2 NAG P C4 1 HETATM 23 C C5 . NAG A 1 . ? -5.570 -23.712 -3.277 1.00 0.00 ? 2 NAG P C5 1 HETATM 24 C C6 . NAG A 1 . ? -4.278 -24.202 -3.914 1.00 0.00 ? 2 NAG P C6 1 HETATM 25 C C7 . NAG A 1 . ? -9.605 -24.014 0.195 1.00 0.00 ? 2 NAG P C7 1 HETATM 26 C C8 . NAG A 1 . ? -10.931 -23.318 0.510 1.00 0.00 ? 2 NAG P C8 1 HETATM 27 N N2 . NAG A 1 . ? -8.952 -23.443 -0.842 1.00 0.00 ? 2 NAG P N2 1 HETATM 28 O O3 . NAG A 1 . ? -6.360 -22.579 0.153 1.00 0.00 ? 2 NAG P O3 1 HETATM 29 O O4 . NAG A 1 . ? -4.480 -22.132 -1.898 1.00 0.00 ? 2 NAG P O4 1 HETATM 30 O O5 . NAG A 1 . ? -6.527 -24.769 -3.254 1.00 0.00 ? 2 NAG P O5 1 HETATM 31 O O6 . NAG A 1 . ? -4.529 -24.627 -5.237 1.00 0.00 ? 2 NAG P O6 1 HETATM 32 O O7 . NAG A 1 . ? -9.216 -24.978 0.843 1.00 0.00 ? 2 NAG P O7 1 HETATM 33 H H1 . NAG A 1 . ? -8.165 -23.545 -3.379 1.00 0.00 ? 2 NAG P H1 1 HETATM 34 H H2 . NAG A 1 . ? -7.338 -24.771 -0.696 1.00 0.00 ? 2 NAG P H2 1 HETATM 35 H H3 . NAG A 1 . ? -6.993 -21.890 -1.654 1.00 0.00 ? 2 NAG P H3 1 HETATM 36 H H4 . NAG A 1 . ? -4.828 -24.008 -1.271 1.00 0.00 ? 2 NAG P H4 1 HETATM 37 H H5 . NAG A 1 . ? -6.004 -22.900 -3.881 1.00 0.00 ? 2 NAG P H5 1 HETATM 38 H H61 . NAG A 1 . ? -3.842 -25.028 -3.332 1.00 0.00 ? 2 NAG P H61 1 HETATM 39 H H62 . NAG A 1 . ? -3.527 -23.400 -3.932 1.00 0.00 ? 2 NAG P H62 1 HETATM 40 H H81 . NAG A 1 . ? -11.361 -23.704 1.445 1.00 0.00 ? 2 NAG P H81 1 HETATM 41 H H82 . NAG A 1 . ? -10.786 -22.234 0.623 1.00 0.00 ? 2 NAG P H82 1 HETATM 42 H H83 . NAG A 1 . ? -11.660 -23.485 -0.297 1.00 0.00 ? 2 NAG P H83 1 HETATM 43 H HN2 . NAG A 1 . ? -9.373 -22.662 -1.303 1.00 0.00 ? 2 NAG P HN2 1 HETATM 44 C C1 . BDP A 1 . ? -6.804 -21.365 0.683 1.00 0.00 ? 3 BDP P C1 1 HETATM 45 C C2 . BDP A 1 . ? -6.654 -21.410 2.188 1.00 0.00 ? 3 BDP P C2 1 HETATM 46 C C3 . BDP A 1 . ? -7.173 -20.130 2.806 1.00 0.00 ? 3 BDP P C3 1 HETATM 47 C C4 . BDP A 1 . ? -6.490 -18.937 2.182 1.00 0.00 ? 3 BDP P C4 1 HETATM 48 C C5 . BDP A 1 . ? -6.615 -18.975 0.669 1.00 0.00 ? 3 BDP P C5 1 HETATM 49 C C6 . BDP A 1 . ? -5.875 -17.809 -0.017 1.00 0.00 ? 3 BDP P C6 1 HETATM 50 O O2 . BDP A 1 . ? -7.387 -22.512 2.686 1.00 0.00 ? 3 BDP P O2 1 HETATM 51 O O3 . BDP A 1 . ? -6.935 -20.127 4.199 1.00 0.00 ? 3 BDP P O3 1 HETATM 52 O O4 . BDP A 1 . ? -7.100 -17.775 2.662 1.00 0.00 ? 3 BDP P O4 1 HETATM 53 O O5 . BDP A 1 . ? -6.118 -20.219 0.178 1.00 0.00 ? 3 BDP P O5 1 HETATM 54 O O6A . BDP A 1 . ? -6.526 -17.020 -0.701 1.00 0.00 ? 3 BDP P O6A 1 HETATM 55 O O6B . BDP A 1 . ? -4.658 -17.697 0.141 1.00 0.00 ? 3 BDP P O6B 1 HETATM 56 H H1 . BDP A 1 . ? -7.869 -21.250 0.407 1.00 0.00 ? 3 BDP P H1 1 HETATM 57 H H2 . BDP A 1 . ? -5.591 -21.544 2.443 1.00 0.00 ? 3 BDP P H2 1 HETATM 58 H H3 . BDP A 1 . ? -8.256 -20.047 2.627 1.00 0.00 ? 3 BDP P H3 1 HETATM 59 H H4 . BDP A 1 . ? -5.428 -18.915 2.476 1.00 0.00 ? 3 BDP P H4 1 HETATM 60 H H5 . BDP A 1 . ? -7.680 -18.937 0.390 1.00 0.00 ? 3 BDP P H5 1 HETATM 61 C C1 . NAG A 1 . ? -6.273 -16.806 3.232 1.00 0.00 ? 4 NAG P C1 1 HETATM 62 C C2 . NAG A 1 . ? -7.070 -15.530 3.378 1.00 0.00 ? 4 NAG P C2 1 HETATM 63 C C3 . NAG A 1 . ? -6.234 -14.436 4.003 1.00 0.00 ? 4 NAG P C3 1 HETATM 64 C C4 . NAG A 1 . ? -5.582 -14.921 5.272 1.00 0.00 ? 4 NAG P C4 1 HETATM 65 C C5 . NAG A 1 . ? -4.840 -16.220 5.048 1.00 0.00 ? 4 NAG P C5 1 HETATM 66 C C6 . NAG A 1 . ? -4.256 -16.748 6.350 1.00 0.00 ? 4 NAG P C6 1 HETATM 67 C C7 . NAG A 1 . ? -8.852 -15.016 1.750 1.00 0.00 ? 4 NAG P C7 1 HETATM 68 C C8 . NAG A 1 . ? -9.082 -14.544 0.313 1.00 0.00 ? 4 NAG P C8 1 HETATM 69 N N2 . NAG A 1 . ? -7.540 -15.119 2.058 1.00 0.00 ? 4 NAG P N2 1 HETATM 70 O O3 . NAG A 1 . ? -7.058 -13.354 4.316 1.00 0.00 ? 4 NAG P O3 1 HETATM 71 O O4 . NAG A 1 . ? -4.683 -13.956 5.708 1.00 0.00 ? 4 NAG P O4 1 HETATM 72 O O5 . NAG A 1 . ? -5.737 -17.183 4.498 1.00 0.00 ? 4 NAG P O5 1 HETATM 73 O O6 . NAG A 1 . ? -3.554 -17.948 6.107 1.00 0.00 ? 4 NAG P O6 1 HETATM 74 O O7 . NAG A 1 . ? -9.787 -15.257 2.505 1.00 0.00 ? 4 NAG P O7 1 HETATM 75 H H1 . NAG A 1 . ? -5.420 -16.647 2.547 1.00 0.00 ? 4 NAG P H1 1 HETATM 76 H H2 . NAG A 1 . ? -7.940 -15.725 4.023 1.00 0.00 ? 4 NAG P H2 1 HETATM 77 H H3 . NAG A 1 . ? -5.461 -14.095 3.297 1.00 0.00 ? 4 NAG P H3 1 HETATM 78 H H4 . NAG A 1 . ? -6.336 -15.041 6.065 1.00 0.00 ? 4 NAG P H4 1 HETATM 79 H H5 . NAG A 1 . ? -4.038 -16.070 4.308 1.00 0.00 ? 4 NAG P H5 1 HETATM 80 H H61 . NAG A 1 . ? -5.048 -16.922 7.094 1.00 0.00 ? 4 NAG P H61 1 HETATM 81 H H62 . NAG A 1 . ? -3.566 -16.013 6.791 1.00 0.00 ? 4 NAG P H62 1 HETATM 82 H H81 . NAG A 1 . ? -10.145 -14.318 0.142 1.00 0.00 ? 4 NAG P H81 1 HETATM 83 H H82 . NAG A 1 . ? -8.501 -13.634 0.102 1.00 0.00 ? 4 NAG P H82 1 HETATM 84 H H83 . NAG A 1 . ? -8.778 -15.320 -0.406 1.00 0.00 ? 4 NAG P H83 1 HETATM 85 H HN2 . NAG A 1 . ? -6.862 -14.904 1.356 1.00 0.00 ? 4 NAG P HN2 1 HETATM 86 C C1 . BDP A 1 . ? -6.901 -12.190 3.559 1.00 0.00 ? 5 BDP P C1 1 HETATM 87 C C2 . BDP A 1 . ? -8.038 -11.245 3.881 1.00 0.00 ? 5 BDP P C2 1 HETATM 88 C C3 . BDP A 1 . ? -7.929 -9.989 3.044 1.00 0.00 ? 5 BDP P C3 1 HETATM 89 C C4 . BDP A 1 . ? -6.570 -9.357 3.227 1.00 0.00 ? 5 BDP P C4 1 HETATM 90 C C5 . BDP A 1 . ? -5.467 -10.366 2.954 1.00 0.00 ? 5 BDP P C5 1 HETATM 91 C C6 . BDP A 1 . ? -4.059 -9.784 3.192 1.00 0.00 ? 5 BDP P C6 1 HETATM 92 O O2 . BDP A 1 . ? -9.262 -11.897 3.607 1.00 0.00 ? 5 BDP P O2 1 HETATM 93 O O3 . BDP A 1 . ? -8.927 -9.062 3.420 1.00 0.00 ? 5 BDP P O3 1 HETATM 94 O O4 . BDP A 1 . ? -6.450 -8.294 2.329 1.00 0.00 ? 5 BDP P O4 1 HETATM 95 O O5 . BDP A 1 . ? -5.659 -11.519 3.773 1.00 0.00 ? 5 BDP P O5 1 HETATM 96 O O6A . BDP A 1 . ? -3.272 -9.744 2.246 1.00 0.00 ? 5 BDP P O6A 1 HETATM 97 O O6B . BDP A 1 . ? -3.762 -9.376 4.316 1.00 0.00 ? 5 BDP P O6B 1 HETATM 98 H H1 . BDP A 1 . ? -6.931 -12.480 2.492 1.00 0.00 ? 5 BDP P H1 1 HETATM 99 H H2 . BDP A 1 . ? -8.003 -10.986 4.950 1.00 0.00 ? 5 BDP P H2 1 HETATM 100 H H3 . BDP A 1 . ? -8.058 -10.243 1.980 1.00 0.00 ? 5 BDP P H3 1 HETATM 101 H H4 . BDP A 1 . ? -6.476 -8.957 4.250 1.00 0.00 ? 5 BDP P H4 1 HETATM 102 H H5 . BDP A 1 . ? -5.541 -10.713 1.912 1.00 0.00 ? 5 BDP P H5 1 HETATM 103 C C1 . NAG A 1 . ? -6.094 -7.051 2.853 1.00 0.00 ? 6 NAG P C1 1 HETATM 104 C C2 . NAG A 1 . ? -5.699 -6.147 1.705 1.00 0.00 ? 6 NAG P C2 1 HETATM 105 C C3 . NAG A 1 . ? -5.309 -4.778 2.210 1.00 0.00 ? 6 NAG P C3 1 HETATM 106 C C4 . NAG A 1 . ? -6.396 -4.214 3.091 1.00 0.00 ? 6 NAG P C4 1 HETATM 107 C C5 . NAG A 1 . ? -6.746 -5.184 4.201 1.00 0.00 ? 6 NAG P C5 1 HETATM 108 C C6 . NAG A 1 . ? -7.883 -4.652 5.062 1.00 0.00 ? 6 NAG P C6 1 HETATM 109 C C7 . NAG A 1 . ? -4.659 -7.105 -0.317 1.00 0.00 ? 6 NAG P C7 1 HETATM 110 C C8 . NAG A 1 . ? -3.356 -7.713 -0.838 1.00 0.00 ? 6 NAG P C8 1 HETATM 111 N N2 . NAG A 1 . ? -4.588 -6.764 0.988 1.00 0.00 ? 6 NAG P N2 1 HETATM 112 O O3 . NAG A 1 . ? -5.118 -3.919 1.125 1.00 0.00 ? 6 NAG P O3 1 HETATM 113 O O4 . NAG A 1 . ? -5.943 -3.002 3.651 1.00 0.00 ? 6 NAG P O4 1 HETATM 114 O O5 . NAG A 1 . ? -7.127 -6.432 3.621 1.00 0.00 ? 6 NAG P O5 1 HETATM 115 O O6 . NAG A 1 . ? -8.173 -5.572 6.093 1.00 0.00 ? 6 NAG P O6 1 HETATM 116 O O7 . NAG A 1 . ? -5.635 -6.958 -1.044 1.00 0.00 ? 6 NAG P O7 1 HETATM 117 H H1 . NAG A 1 . ? -5.232 -7.205 3.528 1.00 0.00 ? 6 NAG P H1 1 HETATM 118 H H2 . NAG A 1 . ? -6.555 -6.045 1.020 1.00 0.00 ? 6 NAG P H2 1 HETATM 119 H H3 . NAG A 1 . ? -4.363 -4.844 2.772 1.00 0.00 ? 6 NAG P H3 1 HETATM 120 H H4 . NAG A 1 . ? -7.292 -4.014 2.482 1.00 0.00 ? 6 NAG P H4 1 HETATM 121 H H5 . NAG A 1 . ? -5.861 -5.382 4.826 1.00 0.00 ? 6 NAG P H5 1 HETATM 122 H H61 . NAG A 1 . ? -8.784 -4.472 4.457 1.00 0.00 ? 6 NAG P H61 1 HETATM 123 H H62 . NAG A 1 . ? -7.608 -3.686 5.512 1.00 0.00 ? 6 NAG P H62 1 HETATM 124 H H81 . NAG A 1 . ? -3.391 -7.835 -1.931 1.00 0.00 ? 6 NAG P H81 1 HETATM 125 H H82 . NAG A 1 . ? -2.498 -7.068 -0.594 1.00 0.00 ? 6 NAG P H82 1 HETATM 126 H H83 . NAG A 1 . ? -3.179 -8.702 -0.390 1.00 0.00 ? 6 NAG P H83 1 HETATM 127 H HN2 . NAG A 1 . ? -3.738 -6.940 1.485 1.00 0.00 ? 6 NAG P HN2 1 HETATM 128 C C1 . BDP A 1 . ? -3.810 -3.509 0.857 1.00 0.00 ? 7 BDP P C1 1 HETATM 129 C C2 . BDP A 1 . ? -3.787 -2.805 -0.482 1.00 0.00 ? 7 BDP P C2 1 HETATM 130 C C3 . BDP A 1 . ? -2.375 -2.390 -0.833 1.00 0.00 ? 7 BDP P C3 1 HETATM 131 C C4 . BDP A 1 . ? -1.784 -1.558 0.280 1.00 0.00 ? 7 BDP P C4 1 HETATM 132 C C5 . BDP A 1 . ? -1.891 -2.285 1.610 1.00 0.00 ? 7 BDP P C5 1 HETATM 133 C C6 . BDP A 1 . ? -1.356 -1.447 2.789 1.00 0.00 ? 7 BDP P C6 1 HETATM 134 O O2 . BDP A 1 . ? -4.286 -3.686 -1.468 1.00 0.00 ? 7 BDP P O2 1 HETATM 135 O O3 . BDP A 1 . ? -2.369 -1.637 -2.029 1.00 0.00 ? 7 BDP P O3 1 HETATM 136 O O4 . BDP A 1 . ? -0.436 -1.325 -0.005 1.00 0.00 ? 7 BDP P O4 1 HETATM 137 O O5 . BDP A 1 . ? -3.250 -2.648 1.849 1.00 0.00 ? 7 BDP P O5 1 HETATM 138 O O6A . BDP A 1 . ? -0.410 -1.888 3.441 1.00 0.00 ? 7 BDP P O6A 1 HETATM 139 O O6B . BDP A 1 . ? -1.886 -0.364 3.042 1.00 0.00 ? 7 BDP P O6B 1 HETATM 140 H H1 . BDP A 1 . ? -3.177 -4.416 0.825 1.00 0.00 ? 7 BDP P H1 1 HETATM 141 H H2 . BDP A 1 . ? -4.437 -1.917 -0.436 1.00 0.00 ? 7 BDP P H2 1 HETATM 142 H H3 . BDP A 1 . ? -1.751 -3.287 -0.970 1.00 0.00 ? 7 BDP P H3 1 HETATM 143 H H4 . BDP A 1 . ? -2.298 -0.584 0.336 1.00 0.00 ? 7 BDP P H4 1 HETATM 144 H H5 . BDP A 1 . ? -1.326 -3.229 1.555 1.00 0.00 ? 7 BDP P H5 1 HETATM 145 C C1 . NAG A 1 . ? 0.000 0.000 0.000 1.00 0.00 ? 8 NAG P C1 1 HETATM 146 C C2 . NAG A 1 . ? 1.512 0.000 0.000 1.00 0.00 ? 8 NAG P C2 1 HETATM 147 C C3 . NAG A 1 . ? 2.051 1.414 0.000 1.00 0.00 ? 8 NAG P C3 1 HETATM 148 C C4 . NAG A 1 . ? 1.426 2.217 -1.125 1.00 0.00 ? 8 NAG P C4 1 HETATM 149 C C5 . NAG A 1 . ? -0.087 2.140 -1.064 1.00 0.00 ? 8 NAG P C5 1 HETATM 150 C C6 . NAG A 1 . ? -0.726 2.889 -2.225 1.00 0.00 ? 8 NAG P C6 1 HETATM 151 C C7 . NAG A 1 . ? 2.927 -1.670 1.137 1.00 0.00 ? 8 NAG P C7 1 HETATM 152 C C8 . NAG A 1 . ? 3.215 -2.285 2.508 1.00 0.00 ? 8 NAG P C8 1 HETATM 153 N N2 . NAG A 1 . ? 1.968 -0.719 1.187 1.00 0.00 ? 8 NAG P N2 1 HETATM 154 O O3 . NAG A 1 . ? 3.453 1.373 -0.172 1.00 0.00 ? 8 NAG P O3 1 HETATM 155 O O4 . NAG A 1 . ? 1.825 3.569 -1.018 1.00 0.00 ? 8 NAG P O4 1 HETATM 156 O O5 . NAG A 1 . ? -0.482 0.769 -1.102 1.00 0.00 ? 8 NAG P O5 1 HETATM 157 O O6 . NAG A 1 . ? -2.133 2.808 -2.130 1.00 0.00 ? 8 NAG P O6 1 HETATM 158 O O7 . NAG A 1 . ? 3.526 -2.031 0.131 1.00 0.00 ? 8 NAG P O7 1 HETATM 159 H H1 . NAG A 1 . ? -0.381 0.475 0.923 1.00 0.00 ? 8 NAG P H1 1 HETATM 160 H H2 . NAG A 1 . ? 1.860 -0.537 -0.897 1.00 0.00 ? 8 NAG P H2 1 HETATM 161 H H3 . NAG A 1 . ? 1.816 1.886 0.966 1.00 0.00 ? 8 NAG P H3 1 HETATM 162 H H4 . NAG A 1 . ? 1.765 1.822 -2.096 1.00 0.00 ? 8 NAG P H4 1 HETATM 163 H H5 . NAG A 1 . ? -0.450 2.548 -0.107 1.00 0.00 ? 8 NAG P H5 1 HETATM 164 H H61 . NAG A 1 . ? -0.392 2.478 -3.190 1.00 0.00 ? 8 NAG P H61 1 HETATM 165 H H62 . NAG A 1 . ? -0.428 3.948 -2.215 1.00 0.00 ? 8 NAG P H62 1 HETATM 166 H H81 . NAG A 1 . ? 4.054 -2.994 2.449 1.00 0.00 ? 8 NAG P H81 1 HETATM 167 H H82 . NAG A 1 . ? 3.477 -1.507 3.240 1.00 0.00 ? 8 NAG P H82 1 HETATM 168 H H83 . NAG A 1 . ? 2.335 -2.827 2.885 1.00 0.00 ? 8 NAG P H83 1 HETATM 169 H HN2 . NAG A 1 . ? 1.547 -0.505 2.068 1.00 0.00 ? 8 NAG P HN2 1 # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1 _pdbx_struct_assembly_gen.asym_id_list A # _pdbx_struct_oper_list.id 1 _pdbx_struct_oper_list.type 'identity operation' _pdbx_struct_oper_list.name 1_555 _pdbx_struct_oper_list.symmetry_operation x,y,z _pdbx_struct_oper_list.matrix[1][1] 1.0000000000 _pdbx_struct_oper_list.matrix[1][2] 0.0000000000 _pdbx_struct_oper_list.matrix[1][3] 0.0000000000 _pdbx_struct_oper_list.vector[1] 0.0000000000 _pdbx_struct_oper_list.matrix[2][1] 0.0000000000 _pdbx_struct_oper_list.matrix[2][2] 1.0000000000 _pdbx_struct_oper_list.matrix[2][3] 0.0000000000 _pdbx_struct_oper_list.vector[2] 0.0000000000 _pdbx_struct_oper_list.matrix[3][1] 0.0000000000 _pdbx_struct_oper_list.matrix[3][2] 0.0000000000 _pdbx_struct_oper_list.matrix[3][3] 1.0000000000 _pdbx_struct_oper_list.vector[3] 0.0000000000 # loop_ _pdbx_audit_revision_history.ordinal _pdbx_audit_revision_history.data_content_type _pdbx_audit_revision_history.major_revision _pdbx_audit_revision_history.minor_revision _pdbx_audit_revision_history.revision_date 1 'Structure model' 1 0 2006-10-30 2 'Structure model' 1 1 2011-06-02 3 'Structure model' 1 2 2011-07-13 4 'Structure model' 1 3 2018-10-03 5 'Structure model' 2 0 2020-07-29 # loop_ _pdbx_audit_revision_details.ordinal _pdbx_audit_revision_details.revision_ordinal _pdbx_audit_revision_details.data_content_type _pdbx_audit_revision_details.provider _pdbx_audit_revision_details.type _pdbx_audit_revision_details.description _pdbx_audit_revision_details.details 1 1 'Structure model' repository 'Initial release' ? ? 2 5 'Structure model' repository Remediation 'Carbohydrate remediation' ? # loop_ _pdbx_audit_revision_group.ordinal _pdbx_audit_revision_group.revision_ordinal _pdbx_audit_revision_group.data_content_type _pdbx_audit_revision_group.group 1 2 'Structure model' 'Version format compliance' 2 3 'Structure model' 'Version format compliance' 3 4 'Structure model' 'Data collection' 4 5 'Structure model' 'Atomic model' 5 5 'Structure model' 'Data collection' 6 5 'Structure model' 'Derived calculations' 7 5 'Structure model' 'Structure summary' # loop_ _pdbx_audit_revision_category.ordinal _pdbx_audit_revision_category.revision_ordinal _pdbx_audit_revision_category.data_content_type _pdbx_audit_revision_category.category 1 4 'Structure model' pdbx_nmr_spectrometer 2 5 'Structure model' atom_site 3 5 'Structure model' chem_comp 4 5 'Structure model' entity 5 5 'Structure model' pdbx_branch_scheme 6 5 'Structure model' pdbx_chem_comp_identifier 7 5 'Structure model' pdbx_entity_branch 8 5 'Structure model' pdbx_entity_branch_descriptor 9 5 'Structure model' pdbx_entity_branch_link 10 5 'Structure model' pdbx_entity_branch_list 11 5 'Structure model' pdbx_entity_nonpoly 12 5 'Structure model' pdbx_nonpoly_scheme 13 5 'Structure model' pdbx_struct_assembly_gen 14 5 'Structure model' struct_asym 15 5 'Structure model' struct_conn # loop_ _pdbx_audit_revision_item.ordinal _pdbx_audit_revision_item.revision_ordinal _pdbx_audit_revision_item.data_content_type _pdbx_audit_revision_item.item 1 4 'Structure model' '_pdbx_nmr_spectrometer.manufacturer' 2 4 'Structure model' '_pdbx_nmr_spectrometer.model' 3 5 'Structure model' '_atom_site.Cartn_x' 4 5 'Structure model' '_atom_site.Cartn_y' 5 5 'Structure model' '_atom_site.Cartn_z' 6 5 'Structure model' '_atom_site.auth_atom_id' 7 5 'Structure model' '_atom_site.auth_comp_id' 8 5 'Structure model' '_atom_site.auth_seq_id' 9 5 'Structure model' '_atom_site.label_asym_id' 10 5 'Structure model' '_atom_site.label_atom_id' 11 5 'Structure model' '_atom_site.label_comp_id' 12 5 'Structure model' '_atom_site.label_entity_id' 13 5 'Structure model' '_atom_site.type_symbol' 14 5 'Structure model' '_chem_comp.name' 15 5 'Structure model' '_chem_comp.type' 16 5 'Structure model' '_pdbx_struct_assembly_gen.asym_id_list' 17 5 'Structure model' '_struct_conn.pdbx_dist_value' 18 5 'Structure model' '_struct_conn.pdbx_leaving_atom_flag' 19 5 'Structure model' '_struct_conn.ptnr1_auth_comp_id' 20 5 'Structure model' '_struct_conn.ptnr1_label_asym_id' 21 5 'Structure model' '_struct_conn.ptnr1_label_atom_id' 22 5 'Structure model' '_struct_conn.ptnr1_label_comp_id' 23 5 'Structure model' '_struct_conn.ptnr2_auth_comp_id' 24 5 'Structure model' '_struct_conn.ptnr2_label_asym_id' 25 5 'Structure model' '_struct_conn.ptnr2_label_atom_id' 26 5 'Structure model' '_struct_conn.ptnr2_label_comp_id' # loop_ _pdbx_branch_scheme.asym_id _pdbx_branch_scheme.entity_id _pdbx_branch_scheme.mon_id _pdbx_branch_scheme.num _pdbx_branch_scheme.pdb_asym_id _pdbx_branch_scheme.pdb_mon_id _pdbx_branch_scheme.pdb_seq_num _pdbx_branch_scheme.auth_asym_id _pdbx_branch_scheme.auth_mon_id _pdbx_branch_scheme.auth_seq_num _pdbx_branch_scheme.hetero A 1 BDP 1 P BDP 1 P BDP 8 n A 1 NAG 2 P NAG 2 P NAG 7 n A 1 BDP 3 P BDP 3 P BDP 6 n A 1 NAG 4 P NAG 4 P NAG 5 n A 1 BDP 5 P BDP 5 P BDP 4 n A 1 NAG 6 P NAG 6 P NAG 3 n A 1 BDP 7 P BDP 7 P BDP 2 n A 1 NAG 8 P NAG 8 P NAG 1 n # loop_ _pdbx_chem_comp_identifier.comp_id _pdbx_chem_comp_identifier.type _pdbx_chem_comp_identifier.program _pdbx_chem_comp_identifier.program_version _pdbx_chem_comp_identifier.identifier BDP 'CONDENSED IUPAC CARBOHYDRATE SYMBOL' GMML 1.0 DGlcpAb BDP 'COMMON NAME' GMML 1.0 'b-D-glucopyranuronic acid' BDP 'IUPAC CARBOHYDRATE SYMBOL' PDB-CARE 1.0 b-D-GlcpA BDP 'SNFG CARBOHYDRATE SYMBOL' GMML 1.0 GlcA NAG 'CONDENSED IUPAC CARBOHYDRATE SYMBOL' GMML 1.0 DGlcpNAcb NAG 'COMMON NAME' GMML 1.0 N-acetyl-b-D-glucopyranosamine NAG 'IUPAC CARBOHYDRATE SYMBOL' PDB-CARE 1.0 b-D-GlcpNAc NAG 'SNFG CARBOHYDRATE SYMBOL' GMML 1.0 GlcNAc # _pdbx_entity_branch.entity_id 1 _pdbx_entity_branch.type oligosaccharide # loop_ _pdbx_entity_branch_descriptor.ordinal _pdbx_entity_branch_descriptor.entity_id _pdbx_entity_branch_descriptor.descriptor _pdbx_entity_branch_descriptor.type _pdbx_entity_branch_descriptor.program _pdbx_entity_branch_descriptor.program_version 1 1 DGlcpNAcb1-4DGlcpAb1-3DGlcpNAcb1-4DGlcpAb1-3DGlcpNAcb1-4DGlcpAb1-3DGlcpNAcb1-4DGlcpAb1-ROH 'Glycam Condensed Sequence' GMML 1.0 2 1 'WURCS=2.0/2,8,7/[a2122A-1b_1-5][a2122h-1b_1-5_2*NCC/3=O]/1-2-1-2-1-2-1-2/a4-b1_b3-c1_c4-d1_d3-e1_e4-f1_f3-g1_g4-h1' WURCS PDB2Glycan 1.1.0 3 1 ;[][b-D-GlcpA]{[(4+1)][b-D-GlcpNAc]{[(3+1)][b-D-GlcpA]{[(4+1)][b-D-GlcpNAc]{[(3+1)][b-D-GlcpA]{[(4+1)][b-D-GlcpNAc]{[(3+1)][b-D-GlcpA]{[(4+1)][b-D-GlcpNAc]{}}}}}}}} ; LINUCS PDB-CARE ? # loop_ _pdbx_entity_branch_link.link_id _pdbx_entity_branch_link.entity_id _pdbx_entity_branch_link.entity_branch_list_num_1 _pdbx_entity_branch_link.comp_id_1 _pdbx_entity_branch_link.atom_id_1 _pdbx_entity_branch_link.leaving_atom_id_1 _pdbx_entity_branch_link.entity_branch_list_num_2 _pdbx_entity_branch_link.comp_id_2 _pdbx_entity_branch_link.atom_id_2 _pdbx_entity_branch_link.leaving_atom_id_2 _pdbx_entity_branch_link.value_order _pdbx_entity_branch_link.details 1 1 2 NAG C1 O1 1 BDP O4 HO4 sing ? 2 1 3 BDP C1 O1 2 NAG O3 HO3 sing ? 3 1 4 NAG C1 O1 3 BDP O4 HO4 sing ? 4 1 5 BDP C1 O1 4 NAG O3 HO3 sing ? 5 1 6 NAG C1 O1 5 BDP O4 HO4 sing ? 6 1 7 BDP C1 O1 6 NAG O3 HO3 sing ? 7 1 8 NAG C1 O1 7 BDP O4 HO4 sing ? # loop_ _pdbx_entity_branch_list.entity_id _pdbx_entity_branch_list.comp_id _pdbx_entity_branch_list.num _pdbx_entity_branch_list.hetero 1 BDP 1 n 1 NAG 2 n 1 BDP 3 n 1 NAG 4 n 1 BDP 5 n 1 NAG 6 n 1 BDP 7 n 1 NAG 8 n #